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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Genetics and Animal Breeding » Research » Publications at this Location » Publication #133794


item Rohrer, Gary
item Freking, Bradley - Brad
item Nonneman, Danny - Dan

Submitted to: Animal Genetics International Conference Proceedings
Publication Type: Proceedings
Publication Acceptance Date: 4/1/2002
Publication Date: 8/10/2002
Citation: Rohrer, G.A., Freking, B.A., Nonneman, D.J. 2002. Genetic mapping porcine EST sequences using length polymorphisms. 28th Animal Genetics International Conference Proceedings. Abstract D115. p. 121-122.

Interpretive Summary:

Technical Abstract: The current priority of the MARC swine genome group is to identify and map SNPs (single nucleotide polymorphisms) associated with EST sequences to develop the comparative map and provide a large number of validated SNP markers for the porcine genome. Our approach is based on sequencing amplicons from animal genomic DNA spanning introns and evaluate the sequence files for polymorphisms. While collecting this sequence data, it was noted that approximately 20% of the amplicons possess polymorphic insertion/deletion events (Fahrenkrug, et al., Anim. Genet., 2002) Some of these insertion/deletion events were actually caused by the presence of a CA/GT dinucleotide repeat. A cost effective method for genotyping these polymorphisms is to design primers flanking the polymorphism, amplify genomic DNA incorporating radioactive nucleotides, separate the fragments with polyacrylamide gel electrophoresis and exposing the gels to film overnight. With this methodology, seven informative microsatellite markers and 36 informative insertion/deletion markers were developed for 42 genes (one intron contained informative microsatellite and insertion/deletion markers). Forty of these genes were placed on the porcine genetic map as two markers did not have enough informative meioses to detect significant linkage. These genes were distributed across 14 of the 19 chromosomes of the porcine genome and develop additional ties between the human and porcine genomes.